Clone RT01048 Report

Search the DGRC for RT01048

Clone and Library Details

Library:RT
Tissue Source:D melanogaster pooled RNA
Created by:
Date Registered:2006-04-14
Comments:TA cloning vector from Invitrogen
Original Plate Number:10
Well:48
Vector:pCR2.1
Associated Gene/Transcriptgcm-RA
Protein status:RT01048.pep: gold
Sequenced Size:1540

Associated Genes

Associations are from manual ordering of a clone or by a periodic analysis.
Gene Date Evidence
CG12245 2006-05-19 RT target
gcm 2008-04-29 Release 5.5 accounting
gcm 2008-08-15 Release 5.9 accounting
gcm 2008-12-18 5.12 accounting

Clone Sequence Records

RT01048.complete Sequence

1540 bp assembled on 2008-07-28

GenBank Submission: BT029286

> RT01048.complete
TCAGTCGACATGGTTTTGAACGGCATGCCTATAACAATGCCAGTACCGAT
GCCAGTGCCCATGCCTGTGCCCAGTCCTCCGGCCACCAAGTCCCGGGTGG
CGATCGACTGGGACATCAACGATTCCAAGATGCCGTCGGTGGGGGAGTTT
GACGATTTCAATGACTGGTCCAACGGACATTGCCGGCTCATCTACTCCGT
GCAGAGTGATGAGGCCAGGAAACATGCCAGCGGTTGGGCCATGCGAAACA
CCAACAACCACAACGTGAATATCCTAAAGAAGAGCTGCCTGGGAGTGCTC
CTCTGCAGTGCCAAGTGCAAGTTGCCCAATGGAGCCAGTGTGCATCTGAG
ACCCGCCATTTGCGACAAGGCCAGAAGGAAGCAGCAGGGCAAACAGTGTC
CCAATAGAAATTGCAATGGTCGCTTGGAAATCCAGGCTTGCCGCGGCCAC
TGCGGCTATCCAGTGACCCACTTCTGGCGCAGGGACGGAAATGGAATCTA
TTTCCAGGCCAAGGGCACCCACGATCACCCCAGACCCGAAGCCAAGGGAT
CCACGGAAGCCAGGCGACTTTTGGCAGGAGGAAGACGTGTGCGAAGTTTG
GCCGTAATGTTGGCCAGGGAATCGGCGCTGAGCGACAAGCTGAGTAGCCT
GAGACCCACAAAACGGCAGGCCAAGACTCAGTCCATCCAGGAGAGCAAGC
GCAGAAGGATGGGTGCTTCCGATGTGCTCGAAACCAAGCAGGAGTTAGTG
GTGCCACCCACCACCTACCTGCCCACATCGACGCCCACACATAGCACCAA
CTTTAATCAATCTCAGGGTTCATATGTCCCAGCAGGACAAGGATCAGTGA
TCAGTCAGTGGAATAGAGAGATTCACTACGAAACGGAGGATCCATGCTAT
GCCAATGGAATGTACTCCTACGATATGCTCCACTCACCTCTCTCAGCGCA
TAGCTCCACGGGCAGTTATTACCAGGAGAACAAACCGCAGCAACTGCAGC
ACTCACAATACCAGCAGCAACTCTCACCGCAGCAACATGTACCAGTCAGC
TATGATCCCAGCCAGCCAATCTCCTCCAGCCTTCAGTGCGGAATGCCTTC
GTATGAAATATGCGACGATACGTCCAGTTTGACCAGCAGCTCGGGCTACT
GTTCCGAGGATTATGGCTACTACAATGGATATCTACCCAACTCGCTGGAC
GTGAGCAATGGAAGCCAAAGCCAGAATCTTAGCCAGGATGCAAGTTTCTA
CACAACCAGCTCGGAGATCTTCAGTGTGTTTGAGTCAACTCTGAATGGCG
GAGGGACCAGTGGCGTGGATCTCATCTACGACGAAGCAACCGCCTATCAG
CAACATCAGCAACAGGGAACTTTTCCGCATCTCACCAATTATCAACAGGA
GCCGCAGGATCAGATGCAGTCCGCCGACTACTACTACAGCAATACGGGAG
TGGACAACTCGTGGAACATTCAAATGGACGCGACATATCACCCAGTCAAC
AGCACGGATCCCATCTATTGCTAGAAGCTTTATCGACCAT

RT01048.complete Blast Records

Blast to MB8.fasta performed 2010-07-15 21:02:33
Subject Length Description Subject Range Query Range Score Percent Strand
gcm-RA 2228 gcm-RA 160..1674 10..1524 7575 100 Plus
gcm2-RA 2455 gcm2-RA 747..822 231..306 230 86.8 Plus
gcm2-RB 2958 gcm2-RB 1289..1364 231..306 230 86.8 Plus
gcm2-RA 2455 gcm2-RA 961..998 442..479 160 94.7 Plus
gcm2-RB 2958 gcm2-RB 1503..1540 442..479 160 94.7 Plus
Blast to d_melanogaster_OreR.fa performed 2019-03-16 02:33:46
Subject Length Description Subject Range Query Range Score Percent Strand
chr2L 23010047 chr2L 9578831..9579949 1524..406 5595 100 Minus
chr2L 23010047 chr2L 9580023..9580420 407..10 1990 100 Minus
chr2L 23010047 chr2L 9609755..9610042 231..515 310 74.7 Plus
Blast to dmel-all-all_noncoding-r5.12.fasta performed on 2010-04-22 21:40:23 has no hits.
Blast to na_all.dmel.RELEASE6 performed 2019-03-16 02:33:44
Subject Length Description Subject Range Query Range Score Percent Strand
2L 23513712 2L 9580003..9581121 1524..406 5595 100 Minus
2L 23513712 2L 9581195..9581592 407..10 1990 100 Minus
2L 23513712 2L 9610830..9611204 144..515 325 73.1 Plus
Blast to na_arms.dmel.RELEASE6 performed 2011-12-12 22:21:06
Subject Length Description Subject Range Query Range Score Percent Strand
2L 23513712 2L 9580003..9581121 1524..406 5595 100 Minus
2L 23513712 2L 9581195..9581592 407..10 1990 100 Minus
2L 23513712 2L 9610917..9610992 231..306 230 86.8 Plus
2L 23513712 2L 9611131..9611168 442..479 160 94.7 Plus
Blast to na_te.dros performed on 2019-03-16 02:33:44 has no hits.

RT01048.complete Sim4 Records

Sim4 to d_melanogaster_OreR.fa performed 2019-03-16 02:34:33 Download gff for RT01048.complete
Subject Subject Range Query Range Percent Splice Strand
chr2L 9578831..9579947 408..1524 100 <- Minus
chr2L 9580023..9580428 2..407 99   Minus
Sim4 to dmel-all-CDS-r5.12.fasta performed 2008-12-08 20:55:06 Download gff for RT01048.complete
Subject Subject Range Query Range Percent Splice Strand
gcm-RA 1..1515 10..1524 100   Plus
Sim4 to dmel-all-CDS-r5.32.fasta performed 2011-03-16 21:03:29 Download gff for RT01048.complete
Subject Subject Range Query Range Percent Splice Strand
gcm-RA 1..1515 10..1524 100   Plus
Sim4 to dmel-all-CDS-r5.52.fasta performed 2013-08-04 07:21:16 Download gff for RT01048.complete
Subject Subject Range Query Range Percent Splice Strand
gcm-RA 1..1515 10..1524 100   Plus
Sim4 to dmel-all-CDS-r5.9.fasta performed 2008-11-04 14:45:13 Download gff for RT01048.complete
Subject Subject Range Query Range Percent Splice Strand
gcm-RA 1..1515 10..1524 100   Plus
Sim4 to dmel-all-CDS-r6.02.fasta performed 2014-11-27 05:15:28 Download gff for RT01048.complete
Subject Subject Range Query Range Percent Splice Strand
gcm-RA 1..1515 10..1524 100   Plus
Sim4 to dmel-all-transcript-r5.12.fasta performed 2008-11-11 01:23:16 Download gff for RT01048.complete
Subject Subject Range Query Range Percent Splice Strand
gcm-RA 143..1665 2..1524 99   Plus
Sim4 to dmel-all-transcript-r5.32.fasta performed 2011-03-16 21:03:29 Download gff for RT01048.complete
Subject Subject Range Query Range Percent Splice Strand
gcm-RA 143..1665 2..1524 99   Plus
Sim4 to dmel-all-transcript-r5.52.fasta performed 2013-08-04 07:21:16 Download gff for RT01048.complete
Subject Subject Range Query Range Percent Splice Strand
gcm-RA 146..1668 2..1524 99   Plus
Sim4 to dmel-all-transcript-r5.9.fasta performed 2008-11-04 14:45:12 Download gff for RT01048.complete
Subject Subject Range Query Range Percent Splice Strand
gcm-RA 143..1665 2..1524 99   Plus
Sim4 to dmel-all-transcript-r6.02.fasta performed 2014-11-27 05:15:28 Download gff for RT01048.complete
Subject Subject Range Query Range Percent Splice Strand
gcm-RA 146..1668 2..1524 99   Plus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 02:34:33 Download gff for RT01048.complete
Subject Subject Range Query Range Percent Splice Strand
2L 9580003..9581119 408..1524 100 <- Minus
2L 9581195..9581600 2..407 99   Minus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 02:34:33 Download gff for RT01048.complete
Subject Subject Range Query Range Percent Splice Strand
2L 9580003..9581119 408..1524 100 <- Minus
2L 9581195..9581600 2..407 99   Minus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 02:34:33 Download gff for RT01048.complete
Subject Subject Range Query Range Percent Splice Strand
2L 9580003..9581119 408..1524 100 <- Minus
2L 9581195..9581600 2..407 99   Minus
Sim4 to na_arms.dmel.RELEASE5 performed 2013-08-04 07:21:16 Download gff for RT01048.complete
Subject Subject Range Query Range Percent Splice Strand
arm_2L 9580003..9581119 408..1524 100 <- Minus
arm_2L 9581195..9581600 2..407 99   Minus
Sim4 to na_arms.dmel.RELEASE6 performed 2011-12-09 18:31:35 Download gff for RT01048.complete
Subject Subject Range Query Range Percent Splice Strand
2L 9580003..9581119 408..1524 100 <- Minus
2L 9581195..9581600 2..407 99   Minus

RT01048.pep Sequence

Translation from 0 to 1523

> RT01048.pep
SVDMVLNGMPITMPVPMPVPMPVPSPPATKSRVAIDWDINDSKMPSVGEF
DDFNDWSNGHCRLIYSVQSDEARKHASGWAMRNTNNHNVNILKKSCLGVL
LCSAKCKLPNGASVHLRPAICDKARRKQQGKQCPNRNCNGRLEIQACRGH
CGYPVTHFWRRDGNGIYFQAKGTHDHPRPEAKGSTEARRLLAGGRRVRSL
AVMLARESALSDKLSSLRPTKRQAKTQSIQESKRRRMGASDVLETKQELV
VPPTTYLPTSTPTHSTNFNQSQGSYVPAGQGSVISQWNREIHYETEDPCY
ANGMYSYDMLHSPLSAHSSTGSYYQENKPQQLQHSQYQQQLSPQQHVPVS
YDPSQPISSSLQCGMPSYEICDDTSSLTSSSGYCSEDYGYYNGYLPNSLD
VSNGSQSQNLSQDASFYTTSSEIFSVFESTLNGGGTSGVDLIYDEATAYQ
QHQQQGTFPHLTNYQQEPQDQMQSADYYYSNTGVDNSWNIQMDATYHPVN
STDPIYC*

RT01048.pep Blast Records

Blast to dana-all-translation-r1.3.fasta performed 2019-03-15 18:09:03
Subject Length Description Subject Range Query Range Score Percent Strand
Dana\GF21907-PA 498 GF21907-PA 21..498 28..507 1692 74.4 Plus
Dana\GF22779-PA 593 GF22779-PA 67..226 36..192 642 68.1 Plus
Blast to dere-all-translation-r1.3.fasta performed 2019-03-15 18:09:04
Subject Length Description Subject Range Query Range Score Percent Strand
Dere\GG24019-PA 710 GG24019-PA 207..710 4..507 2209 89 Plus
Dere\GG10041-PA 477 GG10041-PA 52..270 21..243 653 57.6 Plus
Blast to dgri-all-translation-r1.3.fasta performed 2019-03-15 18:09:05
Subject Length Description Subject Range Query Range Score Percent Strand
Dgri\GH11056-PA 536 GH11056-PA 21..514 29..495 1220 56.2 Plus
Dgri\GH10675-PA 647 GH10675-PA 106..297 36..227 675 62.6 Plus
Blast to dmel-all-translation-r6.23.fasta performed 2019-03-25 11:05:06
Subject Length Description Subject Range Query Range Score Percent Strand
gcm-PB 504 CG12245-PB 1..504 4..507 2726 100 Plus
gcm-PA 504 CG12245-PA 1..504 4..507 2726 100 Plus
gcm2-PA 606 CG3858-PA 53..260 21..233 637 59.2 Plus
Blast to dmoj-all-translation-r1.3.fasta performed 2019-03-15 18:09:06
Subject Length Description Subject Range Query Range Score Percent Strand
Dmoj\GI17574-PA 527 GI17574-PA 42..507 32..495 1238 59.5 Plus
Dmoj\GI11073-PA 648 GI11073-PA 71..236 31..195 667 68.5 Plus
Blast to dper-all-translation-r1.3.fasta performed 2019-03-15 18:09:07
Subject Length Description Subject Range Query Range Score Percent Strand
Dper\GL19218-PA 523 GL19218-PA 1..523 4..507 1483 67.9 Plus
Dper\GL18919-PA 614 GL18919-PA 44..203 36..192 643 68.1 Plus
Blast to dpse-all-translation-r3.2.fasta performed 2019-03-15 18:09:08
Subject Length Description Subject Range Query Range Score Percent Strand
Dpse\GA11505-PA 521 GA11505-PA 1..521 4..507 1474 68.3 Plus
Dpse\GA17734-PA 617 GA17734-PA 47..234 36..218 643 60 Plus
Blast to dsec-all-translation-r1.3.fasta performed 2019-03-15 18:09:09
Subject Length Description Subject Range Query Range Score Percent Strand
Dsec\GM12386-PA 506 GM12386-PA 1..506 4..507 2631 96.6 Plus
Dsec\GM17569-PA 602 GM17569-PA 50..268 21..243 649 54.1 Plus
Blast to dsim-all-translation-r1.4.fasta performed 2019-03-15 18:09:09
Subject Length Description Subject Range Query Range Score Percent Strand
Dsim\GD22349-PA 504 GD22349-PA 1..504 4..507 2627 96.6 Plus
Blast to dvir-all-translation-r1.2.fasta performed 2019-03-15 18:09:10
Subject Length Description Subject Range Query Range Score Percent Strand
Dvir\GJ17916-PA 538 GJ17916-PA 19..517 20..495 1381 60.7 Plus
Dvir\GJ18313-PA 626 GJ18313-PA 72..284 36..243 666 56.3 Plus
Blast to dwil-all-translation-r1.3.fasta performed 2019-03-15 18:09:11
Subject Length Description Subject Range Query Range Score Percent Strand
Dwil\GK23810-PA 496 GK23810-PA 21..474 28..495 1363 63.3 Plus
Dwil\GK23867-PA 585 GK23867-PA 55..251 36..227 662 61.5 Plus
Blast to dyak-all-translation-r1.3.fasta performed 2019-03-15 18:09:12
Subject Length Description Subject Range Query Range Score Percent Strand
Dyak\GE10457-PA 511 GE10457-PA 1..511 4..507 2196 90 Plus
Dyak\GE18856-PA 609 GE18856-PA 52..270 21..243 660 55.4 Plus

RT01048.hyp Sequence

Translation from 4 to 1523

> RT01048.hyp
SKMVLNGMPITMPVPMPVPMPVPSPPATKSRVAIDWDINDSKMPSVGEFD
DFNDWSNGHCRLIYSVQSDEARKHASGWAMRNTNNHNVNILKKSCLGVLL
CSAKCKLPNGASVHLRPAICDKARRKQQGKQCPNRNCNGRLEIQACRGHC
GYPVTHFWRRDGNGIYFQAKGTHDHPRPEAKGSTEARRLLAGGRRVRSLA
VMLARESALSDKLSSLRPTKRQAKTQSIQESKRRRMGASDVLETKQELVV
PPTTYLPTSTPTHSTNFNQSQGSYVPAGQGSVISQWNREIHYETEDPCYA
NGMYSYDMLHSPLSAHSSTGSYYQENKPQQLQHSQYQQQLSPQQHVPVSY
DPSQPISSSLQCGMPSYEICDDTSSLTSSSGYCSEDYGYYNGYLPNSLDV
SNGSQSQNLSQDASFYTTSSEIFSVFESTLNGGGTSGVDLIYDEATAYQQ
HQQQGTFPHLTNYQQEPQDQMQSADYYYSNTGVDNSWNIQMDATYHPVNS
TDPIYC*

RT01048.hyp Blast Records

Blast to dmel-all-translation-r6.02.fasta performed 2014-11-28 17:08:44
Subject Length Description Subject Range Query Range Score Percent Strand
gcm-PB 504 CG12245-PB 1..504 3..506 2726 100 Plus
gcm-PA 504 CG12245-PA 1..504 3..506 2726 100 Plus
gcm2-PA 606 CG3858-PA 53..260 20..232 637 59.2 Plus